validparameter.cpp

   1 /*
   2  *  validparameter.cpp
   3  *  Dotur
   4  *
   5  *  Created by Sarah Westcott on 1/5/09.
   6  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
   7  *
   8  */
   9
  10 #include "validparameter.h"
  11
  12 /***********************************************************************/
  13
  14 ValidParameters::ValidParameters() {
  15         try {
  16
  17                 parameters["phylipfile"]                = "phylipfile";
  18                 parameters["columnfile"]                = "columnfile";
  19                 parameters["listfile"]                  = "listfile";
  20                 parameters["rabundfile"]                = "rabundfile";
  21                 parameters["sabundfile"]                = "sabundfile";
  22                 parameters["namefile"]                  = "namefile";
  23                 parameters["groupfile"]                 = "groupfile";
  24                 parameters["orderfile"]                 = "orderfile";
  25                 parameters["fastafile"]                 = "fastafile";
  26                 parameters["fileroot"]                  = "fileroot";
  27                 parameters["cutoff"]                    = "cutoff";
  28                 parameters["method"]                    = "method";
  29                 parameters["format"]                    = "format";
  30                 parameters["precision"]                 = "precision";
  31                 parameters["label"]                             = "label";
  32                 parameters["line"]                              = "line";
  33                 parameters["iters"]                             = "iters";
  34                 parameters["jumble"]                    = "jumble";
  35                 parameters["freq"]                              = "freq";
  36                 parameters["single"]                    = "single";
  37                 parameters["rarefaction"]               = "rarefaction";
  38                 parameters["sharedrarefaction"] = "sharedrarefaction";
  39                 parameters["shared"]                    = "shared";
  40                 parameters["summary"]                   = "summary";
  41                 parameters["sharedsummary"]             = "sharedsummary";
  42
  43         }
  44         catch(exception& e) {
  45                 cout << "Standard Error: " << e.what() << " has occurred in the ValidParameters class Function ValidParameters. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  46                 exit(1);
  47         }
  48         catch(...) {
  49                 cout << "An unknown error has occurred in the ValidParameters class function ValidParameters. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  50                 exit(1);
  51         }
  52 }
  53
  54 /***********************************************************************/
  55
  56 ValidParameters::~ValidParameters() {}
  57
  58 /***********************************************************************/
  59 bool ValidParameters::isValidParameter(string parameter) {
  60         try {
  61
  62                 //is the parameter in the map
  63                 if ((parameters.find(parameter)) != (parameters.end())) {
  64                         return true;
  65                 }else{
  66                         cout << parameter << " is not a valid parameter in Mothur." << endl;
  67                         return false;
  68                 }
  69
  70         }
  71         catch(exception& e) {
  72                 cout << "Standard Error: " << e.what() << " has occurred in the ValidParameters class Function isValidParameter. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  73                 exit(1);
  74         }
  75         catch(...) {
  76                 cout << "An unknown error has occurred in the ValidParameters class function isValidParameter. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  77                 exit(1);
  78         }
  79 }
  80
  81 /***********************************************************************/